Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,530,723	G→A	58.5%	T188I (ACA→ATA)	USA300HOU_1396 ←	glycosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,530,723	0	G	A	58.5%	5.9 / 21.7	23	T188I (ACA→ATA)	USA300HOU_1396	glycosyltransferase
Reads supporting (aligned to +/- strand):  ref base G (5/4);  new base A (9/4);  total (15/8)
Fisher's exact test for biased strand distribution p-value = 6.62e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01

GGTATCTTTTCACGTACTTTTGCAAATGTTTCTATAATAGTATCTATGCGTTTTACTTGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGCTAAAGATTTACTCACACTTGTCACAATATCACTTTT  >  CP000730/1530597‑1530853                                                                                                                               |                                                                                                                                   ggTATCTTTTCACGTACTTTTGCAAATGTTTCTATAATAGTATCTATGCGTTTTACTTGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGtt                                                                                                                      <  2:98978/141‑1 (MQ=255)      cTTTTCACGTACTTTTGCAAATGTTTCTATAATAGTATCTATGCGTTTTACTTGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGaaa                                                                                                                 <  1:23213/141‑1 (MQ=255)            aCGTACTTTTGCAAATGTTTCTATAATAGTATCTATGCGTTTTACTTGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCAtt                                                                                                           >  2:177122/1‑141 (MQ=255)                      gCACATGTTTCTATATCAGTATGTACGCGTTTTACTTGTCTAAATTTCGACACATTTATTAACACTTTTTCATCTCGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTCTCGTAGGAAGCTGATTTTCACGTACa                                                                                                 <  2:199332/141‑1 (MQ=255)                                cTATAATAGTATCTATGCGTTTTACTTGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATaaa                                                                                       >  1:59941/1‑141 (MQ=255)                                           tCTATGCGTTTTACTTGTCTAAAATTCAATACATGTATTAACACTTTTTCATCTGATGCTATACCAAATTATGATTTTAATGCTATATTATGTTTAGTTGGAAACTCATTTTCACATACAAAATTATAAAACGGAATAAtt                                                                            >  2:157895/1‑141 (MQ=255)                                             tATGCGTTTTACTTGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTCTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATTAATCGGTATAAtttt                                                                          >  2:14747/1‑140 (MQ=255)                                                    tttACTTGGCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTa                                                                   <  1:128776/141‑1 (MQ=255)                                                          tGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCa                                                             <  1:70495/141‑1 (MQ=255)                                                            tCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTCTAACAAATTGTGATTTTACTGCTATGTTATGTTTCGTTGGCAACTAATTATCACGTACTAAATTATAAATCGGTATATTTTCTTTGTTAGTTTCaat                                                           >  2:162664/1‑141 (MQ=255)                                                            tCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCaat                                                           >  2:58390/1‑141 (MQ=255)                                                            tCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCaaa                                                           >  2:44539/1‑140 (MQ=255)                                                                       aTACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTGAGTTTCAATAATCTCAtgtg                                                <  1:177122/141‑1 (MQ=255)                                                                       aTACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCAtgtg                                                >  1:5752/1‑141 (MQ=255)                                                                        tACATGTATTAACACTTTTTTTTTTTTTTTTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTTTTTGTTAGTTTCTATATTTTTATgtgt                                               >  2:33998/1‑141 (MQ=255)                                                                         aCATGTATTAACACTTTTTTTTTTTTTTTTATACCAAATTGTGATTTTAATGCTTTGTTATGTTTAGTTGGAAACTCATTTTCACGTACACAATTATAAATCTGTATAATTTCTTTGTTAGTTTTATTTATTTTTTGTGtt                                              >  2:174313/1‑141 (MQ=255)                                                                                 tAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGc                                      <  1:58390/141‑1 (MQ=255)                                                                                    cacTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGCTaa                                   >  1:232516/1‑141 (MQ=255)                                                                                            cATCTGGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTTTGCTAAAGATTTAc                           >  1:241567/1‑141 (MQ=255)                                                                                                           cAAATTGTTATTTTAAGGTTGTTTTATGTTTAGGTGGTAACTTATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGCTAAAGATTTACTCACACTTGTCACaa            <  1:213497/141‑1 (MQ=255)                                                                                                           cAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGCTAAAGATTTACTCACACTTGTCACaa            >  1:138344/1‑141 (MQ=255)                                                                                                                   gATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGCTAAAGATTTACTCACACTTGTCACAATATAACtt    >  2:132835/1‑141 (MQ=255)                                                                                                                     ttttAATGCTATGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGCTAAAGATTTACTCACACTTGTCACAATATCACtttt  >  1:88488/1‑141 (MQ=255)                                                                                                                               |                                                                                                                                   GGTATCTTTTCACGTACTTTTGCAAATGTTTCTATAATAGTATCTATGCGTTTTACTTGTCTAAAATTCGATACATGTATTAACACTTTTTCATCTGGTGCTATACCAAATTGTGATTTTAATGCTGTGTTATGTTTAGTTGGAAACTCATTTTCACGTACAAAATTATAAATCGGTATAATTTCTTTGTTAGTTTCAATAATTTCATGTGTTTCTTGTGCTAAAGATTTACTCACACTTGTCACAATATCACTTTT  >  CP000730/1530597‑1530853

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑